Hey scientist is examining the function of macromolecules in a cell she notices that movement of large molecules into it and out of the cell is disrupted and she damage is one specific type of macromolecule

The question is: Which macromolecule has she most likely damaged?

The answer is, she damaged a protein. Proteins are macromolecules that have many roles in the cell and one of them is the cellular transport.
On the cell membrane, there are various transport proteins that facilitate the movement of large molecules in an out of the cell. Without them, cellular transport of large molecules would be impossible because the cell membrane is permeable only for small molecules.

This bacteria must be very strong as it has a large amount on antibiotic targeting it. this bacteria could be one of many different types and it is very hard to tell which one with out more information.

Probably a mushroom or a tomato plant